{"id":"https://openalex.org/W3039023400","doi":"https://doi.org/10.1186/s12859-020-3383-3","title":"MASS: predict the global qualities of individual protein models using random forests and novel statistical potentials","display_name":"MASS: predict the global qualities of individual protein models using random forests and novel statistical potentials","publication_year":2020,"publication_date":"2020-07-01","ids":{"openalex":"https://openalex.org/W3039023400","doi":"https://doi.org/10.1186/s12859-020-3383-3","mag":"3039023400","pmid":"https://pubmed.ncbi.nlm.nih.gov/32631256"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-020-3383-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3383-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-020-3383-3","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"review","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-020-3383-3","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100392605","display_name":"Tong Liu","orcid":"https://orcid.org/0000-0001-5497-8117"},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Tong Liu","raw_affiliation_strings":["Department of Computer Science, University of Miami, 1365 Memorial Drive, P.O. Box 248154, Coral Gables, FL, 33124, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Miami, 1365 Memorial Drive, P.O. Box 248154, Coral Gables, FL, 33124, USA","institution_ids":["https://openalex.org/I145608581"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5021699779","display_name":"Zheng Wang","orcid":"https://orcid.org/0000-0003-3892-6151"},"institutions":[{"id":"https://openalex.org/I145608581","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92","country_code":"US","type":"education","lineage":["https://openalex.org/I145608581"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Zheng Wang","raw_affiliation_strings":["Department of Computer Science, University of Miami, 1365 Memorial Drive, P.O. Box 248154, Coral Gables, FL, 33124, USA. zheng.wang@miami.edu","Department of Computer Science, University of Miami, 1365 Memorial Drive, P.O. Box 248154, Coral Gables, FL, 33124, USA"],"affiliations":[{"raw_affiliation_string":"Department of Computer Science, University of Miami, 1365 Memorial Drive, P.O. Box 248154, Coral Gables, FL, 33124, USA. zheng.wang@miami.edu","institution_ids":["https://openalex.org/I145608581"]},{"raw_affiliation_string":"Department of Computer Science, University of Miami, 1365 Memorial Drive, P.O. Box 248154, Coral Gables, FL, 33124, USA","institution_ids":["https://openalex.org/I145608581"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5100392605"],"corresponding_institution_ids":["https://openalex.org/I145608581"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.2507,"has_fulltext":true,"cited_by_count":6,"citation_normalized_percentile":{"value":0.53820697,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"21","issue":"S4","first_page":"246","last_page":"246"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9998000264167786,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9997000098228455,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9962999820709229,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/casp","display_name":"CASP","score":0.8198075890541077},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6796140670776367},{"id":"https://openalex.org/keywords/random-forest","display_name":"Random forest","score":0.649502158164978},{"id":"https://openalex.org/keywords/cluster-analysis","display_name":"Cluster analysis","score":0.580547571182251},{"id":"https://openalex.org/keywords/protein-structure-prediction","display_name":"Protein structure prediction","score":0.5779297351837158},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.5349902510643005},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4985997676849365},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.4599868357181549},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.4496961236000061},{"id":"https://openalex.org/keywords/energy","display_name":"Energy (signal processing)","score":0.4401167333126068},{"id":"https://openalex.org/keywords/statistical-model","display_name":"Statistical model","score":0.43888524174690247},{"id":"https://openalex.org/keywords/quality","display_name":"Quality (philosophy)","score":0.41339945793151855},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.27177894115448},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.19949907064437866},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.15233615040779114},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.11812496185302734}],"concepts":[{"id":"https://openalex.org/C66153294","wikidata":"https://www.wikidata.org/wiki/Q899291","display_name":"CASP","level":4,"score":0.8198075890541077},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6796140670776367},{"id":"https://openalex.org/C169258074","wikidata":"https://www.wikidata.org/wiki/Q245748","display_name":"Random forest","level":2,"score":0.649502158164978},{"id":"https://openalex.org/C73555534","wikidata":"https://www.wikidata.org/wiki/Q622825","display_name":"Cluster analysis","level":2,"score":0.580547571182251},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.5779297351837158},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.5349902510643005},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4985997676849365},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.4599868357181549},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.4496961236000061},{"id":"https://openalex.org/C186370098","wikidata":"https://www.wikidata.org/wiki/Q442787","display_name":"Energy (signal processing)","level":2,"score":0.4401167333126068},{"id":"https://openalex.org/C114289077","wikidata":"https://www.wikidata.org/wiki/Q3284399","display_name":"Statistical model","level":2,"score":0.43888524174690247},{"id":"https://openalex.org/C2779530757","wikidata":"https://www.wikidata.org/wiki/Q1207505","display_name":"Quality (philosophy)","level":2,"score":0.41339945793151855},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.27177894115448},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.19949907064437866},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.15233615040779114},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.11812496185302734},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-020-3383-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3383-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-020-3383-3","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:32631256","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/32631256","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:4a3a0e8f281d4ad2bd648d1b5bec13bc","is_oa":true,"landing_page_url":"https://doaj.org/article/4a3a0e8f281d4ad2bd648d1b5bec13bc","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 21, Iss S4, Pp 1-10 (2020)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:7336608","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7336608","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-020-3383-3","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-020-3383-3","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-020-3383-3","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.5899999737739563,"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15"}],"awards":[{"id":"https://openalex.org/G2294964640","display_name":null,"funder_award_id":"50 and","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G2525969190","display_name":null,"funder_award_id":"R15GM120650","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G6482736948","display_name":null,"funder_award_id":"start-up","funder_id":"https://openalex.org/F4320309249","funder_display_name":"University of Miami"},{"id":"https://openalex.org/G809689749","display_name":null,"funder_award_id":"R15GM120650","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320309249","display_name":"University of Miami","ror":"https://ror.org/02dgjyy92"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3039023400.pdf","grobid_xml":"https://content.openalex.org/works/W3039023400.grobid-xml"},"referenced_works_count":46,"referenced_works":["https://openalex.org/W118179289","https://openalex.org/W273955616","https://openalex.org/W1589812083","https://openalex.org/W1971149989","https://openalex.org/W1974680823","https://openalex.org/W2001956250","https://openalex.org/W2006617902","https://openalex.org/W2029377282","https://openalex.org/W2087181875","https://openalex.org/W2093567555","https://openalex.org/W2104765598","https://openalex.org/W2110483430","https://openalex.org/W2117451312","https://openalex.org/W2120230374","https://openalex.org/W2120372728","https://openalex.org/W2123085274","https://openalex.org/W2124506510","https://openalex.org/W2125677968","https://openalex.org/W2130541969","https://openalex.org/W2131474431","https://openalex.org/W2138755951","https://openalex.org/W2140574901","https://openalex.org/W2141920771","https://openalex.org/W2145957695","https://openalex.org/W2147905080","https://openalex.org/W2154714625","https://openalex.org/W2168321064","https://openalex.org/W2287165934","https://openalex.org/W2290412022","https://openalex.org/W2417306259","https://openalex.org/W2418704427","https://openalex.org/W2514534732","https://openalex.org/W2534288757","https://openalex.org/W2565608178","https://openalex.org/W2594725344","https://openalex.org/W2606314633","https://openalex.org/W2606439133","https://openalex.org/W2794956775","https://openalex.org/W2796925135","https://openalex.org/W2807692668","https://openalex.org/W2807896518","https://openalex.org/W2911964244","https://openalex.org/W2924319274","https://openalex.org/W2942686433","https://openalex.org/W2943867488","https://openalex.org/W2950355539"],"related_works":["https://openalex.org/W2406009210","https://openalex.org/W2411998238","https://openalex.org/W3198923619","https://openalex.org/W2093959518","https://openalex.org/W2334085108","https://openalex.org/W3199799076","https://openalex.org/W2561391236","https://openalex.org/W1599064615","https://openalex.org/W2147472674","https://openalex.org/W3199104097"],"abstract_inverted_index":{"MASS":[0,7],"and":[1],"the":[2],"source":[3],"code":[4],"for":[5],"all":[6],"potentials":[8],"are":[9],"publicly":[10],"available":[11],"at":[12],"http://dna.cs.miami.edu/MASS/":[13],".":[14]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
